miRNA display CGI


Results 1 - 20 of 24 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
16287 3' -54.6 NC_004084.1 + 55530 0.66 0.80452
Target:  5'- uGAUGggaUCCUCCGcgaucgcGCUGGCU-GGCCg -3'
miRNA:   3'- cCUACaa-GGGAGGU-------UGGCCGAgCUGG- -5'
16287 3' -54.6 NC_004084.1 + 34705 0.66 0.79309
Target:  5'- gGGGUGUcgUCCuUUCCGggcgucGCCGGUUCgcgaugagcucgcgGACCa -3'
miRNA:   3'- -CCUACA--AGG-GAGGU------UGGCCGAG--------------CUGG- -5'
16287 3' -54.6 NC_004084.1 + 16539 0.66 0.786313
Target:  5'- cGGGUG-UCUuggCUCuCAACgCGGCUCucgGGCCg -3'
miRNA:   3'- -CCUACaAGG---GAG-GUUG-GCCGAG---CUGG- -5'
16287 3' -54.6 NC_004084.1 + 9756 0.67 0.76654
Target:  5'- aGGUGUcgaaugagCCCgcuUCCAucAUCGGCUgCGGCCg -3'
miRNA:   3'- cCUACAa-------GGG---AGGU--UGGCCGA-GCUGG- -5'
16287 3' -54.6 NC_004084.1 + 12901 0.67 0.756446
Target:  5'- cGGcg--UCCUcggaguggCCGACCGGCcCGGCCa -3'
miRNA:   3'- -CCuacaAGGGa-------GGUUGGCCGaGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 22638 0.67 0.756446
Target:  5'- ----cUUCCCggcgCCu-CCGGCUCGAaCCu -3'
miRNA:   3'- ccuacAAGGGa---GGuuGGCCGAGCU-GG- -5'
16287 3' -54.6 NC_004084.1 + 31310 0.67 0.735899
Target:  5'- gGGGUag-CCCUUCuggauCCGGCUCGGgauCCg -3'
miRNA:   3'- -CCUAcaaGGGAGGuu---GGCCGAGCU---GG- -5'
16287 3' -54.6 NC_004084.1 + 44394 0.67 0.735899
Target:  5'- cGAUG-UCCaCgagCgCGGCUGGCUCGGCa -3'
miRNA:   3'- cCUACaAGG-Ga--G-GUUGGCCGAGCUGg -5'
16287 3' -54.6 NC_004084.1 + 55748 0.67 0.735899
Target:  5'- ---cGUUCCUUU--ACCGGCUCGAa- -3'
miRNA:   3'- ccuaCAAGGGAGguUGGCCGAGCUgg -5'
16287 3' -54.6 NC_004084.1 + 11261 0.67 0.714944
Target:  5'- uGGcgGUUCCUaCgGuUCGaGCUCGACCu -3'
miRNA:   3'- -CCuaCAAGGGaGgUuGGC-CGAGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 1187 0.67 0.714944
Target:  5'- aGGUGUUCg--CCAA-CGGCUCGAUCc -3'
miRNA:   3'- cCUACAAGggaGGUUgGCCGAGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 41063 0.67 0.713888
Target:  5'- cGGAUGUUcuccucacucgagCCCUCgCcuCCGGCgUUGAUCu -3'
miRNA:   3'- -CCUACAA-------------GGGAG-GuuGGCCG-AGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 5104 0.68 0.693672
Target:  5'- aGGcgGg--CCgCCAGCUGGC-CGACCg -3'
miRNA:   3'- -CCuaCaagGGaGGUUGGCCGaGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 53830 0.68 0.693672
Target:  5'- -cGUGUU-CCUCCGGgaaCGGCUCGAauCCg -3'
miRNA:   3'- ccUACAAgGGAGGUUg--GCCGAGCU--GG- -5'
16287 3' -54.6 NC_004084.1 + 50066 0.68 0.682943
Target:  5'- cGGGUGgcgauugCUCUCgAaaacGCCGGCUgGAUCa -3'
miRNA:   3'- -CCUACaa-----GGGAGgU----UGGCCGAgCUGG- -5'
16287 3' -54.6 NC_004084.1 + 12980 0.68 0.682943
Target:  5'- gGGAguugGUUgUCgcaCCGAcauCCGGCUCGAUCg -3'
miRNA:   3'- -CCUa---CAAgGGa--GGUU---GGCCGAGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 55686 0.68 0.672168
Target:  5'- ---cGUUCCUcugCCGcuCUGGUUCGACCg -3'
miRNA:   3'- ccuaCAAGGGa--GGUu-GGCCGAGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 51692 0.69 0.61794
Target:  5'- gGGAcgucGUUCCCguaCCGgacggacaucGCCGGCgUUGACCu -3'
miRNA:   3'- -CCUa---CAAGGGa--GGU----------UGGCCG-AGCUGG- -5'
16287 3' -54.6 NC_004084.1 + 25788 0.7 0.55334
Target:  5'- uGGAa--UCCCUCCAGgUGGCgagCGACg -3'
miRNA:   3'- -CCUacaAGGGAGGUUgGCCGa--GCUGg -5'
16287 3' -54.6 NC_004084.1 + 9210 0.72 0.451131
Target:  5'- uGGAUGgaUCCCgUCCuggauGACCuGCUCGAUCa -3'
miRNA:   3'- -CCUACa-AGGG-AGG-----UUGGcCGAGCUGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.